Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 245 of 290
Found at i:84592650 original size:23 final size:23
Alignment explanation
Indices: 84592623--84592672 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
84592613 TATTTATTAT
84592623 TTACATACAACTTAGCTTTATGC
1 TTACATACAACTTAGCTTTATGC
84592646 TTACATACAACTTAGCTTTATGC
1 TTACATACAACTTAGCTTTATGC
84592669 TTAC
1 TTAC
84592673 CCCCTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (23 bp):
TTACATACAACTTAGCTTTATGC
Found at i:84593377 original size:23 final size:22
Alignment explanation
Indices: 84593347--84593435 Score: 65
Period size: 23 Copynumber: 4.0 Consensus size: 22
84593337 AGCTTATAGT
*
84593347 TTTCAGCTTATTAGAGCTTACC
1 TTTCAGCTCATTAGAGCTTACC
* *
84593369 ATTTCAGCTCGTAAGAGCTTA-C
1 -TTTCAGCTCATTAGAGCTTACC
* *
84593391 TGTTCAGCTTGA-TAAAGCTTACC
1 T-TTCAGC-TCATTAGAGCTTACC
* *
84593414 GTTTCAACTCAATAGAGCTTAC
1 -TTTCAGCTCATTAGAGCTTAC
84593436 TGTTCATTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.02
22 16 0.31
23 33 0.65
24 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (22 bp):
TTTCAGCTCATTAGAGCTTACC
Found at i:84593399 original size:22 final size:22
Alignment explanation
Indices: 84593371--84593441 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
84593361 AGCTTACCAT
84593371 TTCAGCTCGTAAGAGCTTACTG
1 TTCAGCTCGTAAGAGCTTACTG
* *
84593393 TTCAGCTTGATAA-AGCTTACCG
1 TTCAGCTCG-TAAGAGCTTACTG
* *
84593415 TTTCAACTC-AATAGAGCTTACTG
1 -TTCAGCTCGTA-AGAGCTTACTG
84593438 TTCA
1 TTCA
84593442 TTAGCTCAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 1 0.03
22 21 0.54
23 17 0.44
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (22 bp):
TTCAGCTCGTAAGAGCTTACTG
Found at i:84593410 original size:45 final size:45
Alignment explanation
Indices: 84593348--84593441 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
84593338 GCTTATAGTT
* * *
84593348 TTCAGCTTATTAGAGCTTACCATTTCAGCTC-GTAAGAGCTTACTG
1 TTCAGCTTATTAAAGCTTACCATTTCAACTCAAT-AGAGCTTACTG
*
84593393 TTCAGCTTGA-TAAAGCTTACCGTTTCAACTCAATAGAGCTTACTG
1 TTCAGCTT-ATTAAAGCTTACCATTTCAACTCAATAGAGCTTACTG
84593438 TTCA
1 TTCA
84593442 TTAGCTCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
TTCAGCTTATTAAAGCTTACCATTTCAACTCAATAGAGCTTACTG
Found at i:84603461 original size:20 final size:20
Alignment explanation
Indices: 84603438--84603476 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
84603428 TTTATAGCTT
84603438 GCGTATTTTTTTTAGCATAA
1 GCGTATTTTTTTTAGCATAA
84603458 GCGTATTTTTTTTAGCATA
1 GCGTATTTTTTTTAGCATA
84603477 CTTTGGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (20 bp):
GCGTATTTTTTTTAGCATAA
Found at i:84606452 original size:46 final size:48
Alignment explanation
Indices: 84606256--84606525 Score: 217
Period size: 47 Copynumber: 5.8 Consensus size: 48
84606246 CATAGGGTAT
* * *
84606256 AATGCCGATGCCATGTCCCAGAAATGGTCTTACACTGGCTCACCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTCATC
* * * * *
84606304 AAT-TCGATGCCATGTCCCATACATGGTCTTACATTAGCTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTC--ATC
** * * * *
84606353 CGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTCATC
84606401 -A-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC-TC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TCATC
* *
84606445 AATGCCGATG-TATGTCCTAGACAT-GTCTTACACTGGCAT-T-TCAT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCTCATC
*
84606489 AATGTGGCCAATG-CATGTCCCAGACAT-GTCTTACACT
1 AA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
84606526 AGCACACACA
Statistics
Matches: 182, Mismatches: 27, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
43 3 0.02
44 19 0.10
45 15 0.08
46 41 0.23
47 63 0.35
48 3 0.02
49 5 0.03
50 30 0.16
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTCATC
Found at i:84606512 original size:93 final size:92
Alignment explanation
Indices: 84606355--84606525 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 92
84606345 CACATATCCG
* *
84606355 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGA
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATATCGTAGCCAATGCATGTCCCAGA
84606420 CATGTCTTACACTGGCTCTCGTCTCAA
66 CATGTCTTACACTGGCTCTCGTCTCAA
* * *
84606447 TGCCGATG-TATGTCCTAGACAT-GTCTTACACTGGCATTTCATAAT-GTGGCCAATGCATGTCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACA---CAT-ATCGTAGCCAATGCATGTCC
84606509 CAGACATGTCTTACACT
62 CAGACATGTCTTACACT
84606526 AGCACACACA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
90 13 0.19
91 13 0.19
92 8 0.11
93 35 0.50
94 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATATCGTAGCCAATGCATGTCCCAGA
CATGTCTTACACTGGCTCTCGTCTCAA
Found at i:84610714 original size:51 final size:50
Alignment explanation
Indices: 84610646--84610780 Score: 175
Period size: 49 Copynumber: 2.7 Consensus size: 50
84610636 TGTGAGGTCG
84610646 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC--AAACTGTTGATCA
* * * * * **
84610697 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGACTGTTGCTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTGATCA
84610746 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
84610781 TAGATAGCTT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 5 0.07
49 34 0.47
50 2 0.03
51 31 0.43
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTGATCA
Found at i:84618286 original size:21 final size:21
Alignment explanation
Indices: 84618227--84618275 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
84618217 TTACTCCAAG
84618227 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTGATCCATCTCA
*
84618248 GAAGCCGATTGATCCATCTTA
1 GAAGCCGATTGATCCATCTCA
84618269 GAAGCCG
1 GAAGCCG
84618276 GATTCACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (21 bp):
GAAGCCGATTGATCCATCTCA
Found at i:84628996 original size:20 final size:22
Alignment explanation
Indices: 84628968--84629020 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
84628958 AATCACTTAA
*
84628968 GTATCGATACTCATT-CA-ATG
1 GTATTGATACTCATTACAGATG
* * *
84628988 GTATTGATATTCCTTATAGATG
1 GTATTGATACTCATTACAGATG
84629010 GTATTGATACT
1 GTATTGATACT
84629021 GCTTAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 12 0.46
21 1 0.04
22 13 0.50
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (22 bp):
GTATTGATACTCATTACAGATG
Found at i:84638692 original size:11 final size:11
Alignment explanation
Indices: 84638676--84638726 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
84638666 TACTAAATAA
84638676 AATAATAAAAT
1 AATAATAAAAT
84638687 AATAATAAATAT
1 AATAATAAA-AT
* *
84638699 ATTATTAAAAT
1 AATAATAAAAT
*
84638710 ATTAA-ATAAAT
1 AATAATA-AAAT
84638721 AATAAT
1 AATAAT
84638727 TATCTAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 23 0.70
12 9 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:84638728 original size:23 final size:23
Alignment explanation
Indices: 84638669--84638728 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
84638659 ATTTATATAC
84638669 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* *
84638689 T-AATAAATATATTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
84638712 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
84638729 TCTAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 3 0.09
21 1 0.03
22 3 0.09
23 14 0.44
24 8 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:84638751 original size:34 final size:31
Alignment explanation
Indices: 84638663--84638738 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
84638653 GCACATATTT
*
84638663 ATATACTAAATAAAATAATAAAAT-AATAATAA
1 ATATA-TAATTAAAAT-ATAAAATAAATAATAA
* *
84638695 ATATATTATTAAAATATTAAATAAATAATAA
1 ATATATAATTAAAATATAAAATAAATAATAA
* *
84638726 TTATCTAATTAAA
1 ATATATAATTAAA
84638739 TAACTATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 6 0.16
31 26 0.70
32 5 0.14
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATATAATTAAAATATAAAATAAATAATAA
Found at i:84639603 original size:14 final size:14
Alignment explanation
Indices: 84639584--84639612 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
84639574 TATTAAAGGG
84639584 GAGGTCCTTATGAT
1 GAGGTCCTTATGAT
84639598 GAGGTCCTTATGAT
1 GAGGTCCTTATGAT
84639612 G
1 G
84639613 CAATTAGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (14 bp):
GAGGTCCTTATGAT
Found at i:84644569 original size:27 final size:27
Alignment explanation
Indices: 84644517--84645143 Score: 706
Period size: 27 Copynumber: 23.2 Consensus size: 27
84644507 TTACCAGATC
*
84644517 ACCAAAATACCCCT-GTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* **
84644543 ACCAAAATACCTTTGGTTTACAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
84644570 ACCAAAATACCCCTGATTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
84644597 ACCAAAATACCCTTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
84644624 ACTAAAATACTCTTGGTTTATAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
84644651 ACCCAAATACCCCTGATTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
*
84644678 ACCAAAATAGCCC-TAGTTTGTAAAATT
1 ACCAAAATA-CCCTTGGTTTGTAAAATT
* ** * **
84644705 ACCAAAATTCTTTTAGTTTACAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * **
84644732 AGCAAAATACCCCTCGACTTGTAAAATT
1 ACCAAAATA-CCCTTGGTTTGTAAAATT
*
84644760 ACCAAAATACCCTTAGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
84644787 ACTAAAATACCATTGGTTTATAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
84644814 ACCAAAATACCCCTGTTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
84644841 ACCAAAATACCCTTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
84644868 ACTAAAATACCCTTGATTTATAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
84644895 ACCAAAATA-CCTCTGGTTTGTAAAATT
1 ACCAAAATACCCT-TGGTTTGTAAAATT
* * *
84644922 ACCAAAACACCCCTAGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
84644949 ACCAAAATACCCTTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
84644976 ACTAAAATACCCTTGATTTATAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
84645003 ACCAAAATA-CCTCTGGTTTGTAAAATT
1 ACCAAAATACCCT-TGGTTTGTAAAATT
* * *
84645030 ACCAAAACACCCCTAGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
84645057 ACCAAAATACCCCTGATTTGTGAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* ***
84645084 ACTAAAATACCCTTGACCTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * **
84645111 A-CAGAAATACCATCGACTTGTAAAATT
1 ACCA-AAATACCCTTGGTTTGTAAAATT
84645138 ACCAAA
1 ACCAAA
84645144 GAACCCTCGA
Statistics
Matches: 503, Mismatches: 88, Indels: 19
0.82 0.14 0.03
Matches are distributed among these distances:
26 20 0.04
27 456 0.91
28 27 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
ACCAAAATACCCTTGGTTTGTAAAATT
Found at i:84644651 original size:81 final size:81
Alignment explanation
Indices: 84644517--84645121 Score: 804
Period size: 81 Copynumber: 7.5 Consensus size: 81
84644507 TTACCAGATC
* * *
84644517 ACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCTTTGGTTTACAAAATTACCAAAATACC
1 ACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACC
84644581 CCTGATTTGTAAAATT
66 CCTGATTTGTAAAATT
* * *
84644597 ACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACTCTTGGTTTATAAAATTACCCAAATACC
1 ACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACC
84644662 CCTGATTTGTAAAATT
66 CCTGATTTGTAAAATT
* * ** * * *
84644678 ACCAAAATAGCCC-TAGTTTGTAAAATTACCAAAATTCTTTTAGTTTACAAAATTAGCAAAATAC
1 ACCAAAATA-CCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATAC
*
84644742 CCCTCGACTTGTAAAATT
65 CCCT-GATTTGTAAAATT
* * *
84644760 ACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACC
1 ACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACC
*
84644825 CCTGTTTTGTAAAATT
66 CCTGATTTGTAAAATT
* *
84644841 ACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAATACC
1 ACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACC
* *
84644906 TCTGGTTTGTAAAATT
66 CCTGATTTGTAAAATT
* * * * *
84644922 ACCAAAACACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACC
1 ACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACC
* *
84644987 CTTGATTTATAAAATT
66 CCTGATTTGTAAAATT
* * * *
84645003 ACCAAAATA-CCTCTGGTTTGTAAAATTACCAAAACACCCCTAGTTTGTAAAATTACCAAAATAC
1 ACCAAAATACCCT-TGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATAC
*
84645067 CCCTGATTTGTGAAATT
65 CCCTGATTTGTAAAATT
* ***
84645084 ACTAAAATACCCTTGACCTGTAAAATTA-CAGAAATACC
1 ACCAAAATACCCTTGGTTTGTAAAATTACCA-AAATACC
84645122 ATCGACTTGT
Statistics
Matches: 463, Mismatches: 55, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
80 17 0.04
81 371 0.80
82 75 0.16
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
ACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACC
CCTGATTTGTAAAATT
Found at i:84645218 original size:27 final size:27
Alignment explanation
Indices: 84645188--84645330 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
84645178 CGATTTACAA
* *
84645188 AATTACCGAAGTACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
84645215 AATTACCGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
84645242 AATTTCTGAAATATCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
84645269 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
84645296 AATTACCGAGATACCCTTGTGGGGTTAA
1 AATTACCGAAATACCCTTGTAGGG-TAG
84645324 AATTACC
1 AATTACC
84645331 ACTTTGCCCC
Statistics
Matches: 94, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 85 0.90
28 9 0.10
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:84645750 original size:22 final size:22
Alignment explanation
Indices: 84645717--84645781 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
84645707 GCCAATTATT
* *
84645717 CTGATTATGGCTTTGCGCCAAC
1 CTGAATATGGCTCTGCGCCAAC
*
84645739 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTCTGCGCCAAC
* *
84645761 CTGATTATGGCTGTGCGCCAA
1 CTGAATATGGCTCTGCGCCAA
84645782 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (22 bp):
CTGAATATGGCTCTGCGCCAAC
Found at i:84645970 original size:27 final size:27
Alignment explanation
Indices: 84645940--84646040 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
84645930 ATTCTGTTAA
* *
84645940 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
84645967 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
84645994 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
84646021 GTGACTCTGTCACAATATCT
1 GTGGCTATGCCACAATATCT
84646041 CTTCTGGCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.79
28 6 0.10
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:84646005 original size:54 final size:53
Alignment explanation
Indices: 84645942--84646047 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
84645932 TCTGTTAAGT
* * * *
84645942 GGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTATTCTGGA
1 GGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTATTCTGGA
* * *
84645996 GGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTCTTCTGG
1 GGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTATTCTGG
84646048 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 13 0.29
54 32 0.71
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (53 bp):
GGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTATTCTGGA
Found at i:84646174 original size:6 final size:6
Alignment explanation
Indices: 84646165--84646274 Score: 64
Period size: 6 Copynumber: 17.8 Consensus size: 6
84646155 TTGCATTCAC
* * *
84646165 ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT- ATCGCCTA ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * * * *
84646215 ATTCTA ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG GTTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
84646264 ATTTTG ATTCT
1 ATTCTG ATTCT
84646275 AGTTTTGATA
Statistics
Matches: 78, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
5 5 0.06
6 61 0.78
7 8 0.10
8 4 0.05
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:84646272 original size:37 final size:37
Alignment explanation
Indices: 84646190--84646275 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
84646180 CCTGATACTG
* * *
84646190 ATTCTGATTCTATCGCCTAATTCTGATTCTAATTTTG
1 ATTCTGATTCTATCACCTAATTCTGATTCTAATTCTC
* * **
84646227 ATTCTGATTCTGTCACCTGATTCTGATTCTGGTTCTC
1 ATTCTGATTCTATCACCTAATTCTGATTCTAATTCTC
*
84646264 ATTTTGATTCTA
1 ATTCTGATTCTA
84646276 GTTTTGATAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTATCACCTAATTCTGATTCTAATTCTC
Found at i:84648410 original size:27 final size:27
Alignment explanation
Indices: 84648380--84648613 Score: 272
Period size: 27 Copynumber: 8.7 Consensus size: 27
84648370 CTTGGTTTAC
84648380 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
84648407 AAAATCACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
84648434 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
84648461 AAAATTACCGAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
84648488 AAATTTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
84648515 AAAATTACCAAAATGCCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
84648542 AAAATTGCCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
84648569 GAAATTACTAAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
**
84648596 AAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
84648614 TCGACTTTTA
Statistics
Matches: 181, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 4 0.02
27 175 0.97
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:84648518 original size:81 final size:79
Alignment explanation
Indices: 84648380--84648640 Score: 292
Period size: 81 Copynumber: 3.2 Consensus size: 79
84648370 CTTGGTTTAC
* *
84648380 AAAATTACCAAAATACCCCTGGTTTGTAAAATCACCAAAATACCCTTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCT-GTTTGT-AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAA
84648445 AATACCCTTAGTTTGT
64 AATACCCTTAGTTTGT
* * *
84648461 AAAATTACCGAAATACCCTTAGTTTGTAAATTTACTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTACCAAAATACCCCT-GTTTGTAAA-TTACTAAAATACCCTTGGTTTGTAAAATTACCAA
* * *
84648526 AATGCCCCTGGTTTGT
64 AATACCCTTAGTTTGT
* * ** **
84648542 AAAATTGCCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACTTGTAAAATTACTGA
1 AAAATTACCAAAATACCCCTG-TTTGT-AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAA
* *
84648607 AATACCCTCGACTTT-T
64 AATACCCT-TAGTTTGT
84648623 AAAATTA-CAAAAGTACCC
1 AAAATTACCAAAA-TACCC
84648641 TCGATTTACA
Statistics
Matches: 151, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 9 0.06
81 136 0.90
82 6 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (79 bp):
AAAATTACCAAAATACCCCTGTTTGTAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
TACCCTTAGTTTGT
Found at i:84648614 original size:27 final size:27
Alignment explanation
Indices: 84648380--84648684 Score: 246
Period size: 27 Copynumber: 11.3 Consensus size: 27
84648370 CTTGGTTTAC
*
84648380 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * *
84648407 AAAATCACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*
84648434 AAAATTACCAAAATACCCT-TAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* *
84648461 AAAATTACCGAAATACCCT-TAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* * * * *
84648488 AAATTTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
84648515 AAAATTACCAAAATGCCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
*
84648542 AAAATTGCCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * *
84648569 GAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
**
84648596 AAAATTACTGAAATACCCTCGACTTT-T
1 AAAATTACCAAAATACCCTCGA-TTTGT
**
84648623 AAAATTA-CAAAAGTACCCTCGATTTAC
1 AAAATTACCAAAA-TACCCTCGATTTGT
* *** **
84648650 AAAATTGCCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTGT
84648677 AAAATTAC
1 AAAATTAC
84648685 AGAAGTACCC
Statistics
Matches: 234, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.03
27 223 0.95
28 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:84648709 original size:27 final size:27
Alignment explanation
Indices: 84648679--84648819 Score: 149
Period size: 27 Copynumber: 5.2 Consensus size: 27
84648669 CGATTTACAA
* * *
84648679 AATTACAGAAGTACCCTTGGAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
84648706 AATTACTGAAATACTCTTGTAGGTTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
84648733 AATTACCGAAATACCCTTGTAGGGCAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
84648760 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
84648787 AATTA-TCGAGATACCATTGTGGGGTAA
1 AATTACT-GAAATACCCTTGTAGGGTAG
84648814 AATTAC
1 AATTAC
84648820 CATTTTGCCC
Statistics
Matches: 93, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 92 0.99
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:84648851 original size:49 final size:49
Alignment explanation
Indices: 84648793--84648889 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
84648783 GTAGAATTAT
*
84648793 CGAGATACCATTGTGGGGTAAAATTACCATTTTGCCCCTAGGGTGTTAC
1 CGAGATACCATTCTGGGGTAAAATTACCATTTTGCCCCTAGGGTGTTAC
84648842 CGAGATACCATTCTGGGGTAAAATTACCATTTTGCCCCTAGGGTGTTA
1 CGAGATACCATTCTGGGGTAAAATTACCATTTTGCCCCTAGGGTGTTA
84648890 AATGACTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (49 bp):
CGAGATACCATTCTGGGGTAAAATTACCATTTTGCCCCTAGGGTGTTAC
Found at i:84649532 original size:27 final size:27
Alignment explanation
Indices: 84649502--84649554 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
84649492 TATTTTTGAT
84649502 GGCTATGCCATAAATATCTGT-TCTGGA
1 GGCTATGCCA-AAATATCTGTATCTGGA
* *
84649529 GGCTCTGCCACAATATCTGTATCTGG
1 GGCTATGCCAAAATATCTGTATCTGG
84649555 TGACTCTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
GGCTATGCCAAAATATCTGTATCTGGA
Found at i:84649561 original size:27 final size:26
Alignment explanation
Indices: 84649514--84649580 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
84649504 CTATGCCATA
* *
84649514 AATATCTGTTCTGGAGGCTCTGCCAC
1 AATATCTGTTCTGGAGACTCTACCAC
* *
84649540 AATATCTGTATCTGGTGACTCTATCAC
1 AATATCTGT-TCTGGAGACTCTACCAC
84649567 AATATCTGTTCTGG
1 AATATCTGTTCTGG
84649581 CAGCCATGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
AATATCTGTTCTGGAGACTCTACCAC
Found at i:84649707 original size:6 final size:6
Alignment explanation
Indices: 84649698--84649801 Score: 79
Period size: 6 Copynumber: 16.8 Consensus size: 6
84649688 TTGCATTCAC
* *
84649698 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT- ATCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
84649748 ATTTTG ATTCTA ATTTTG ATTCTG ATTCTG CCA-CCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG --ATTCTG ATTCTG ATTCTG
84649797 ATTCT
1 ATTCT
84649802 CATTTTTATT
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.06
6 60 0.78
7 8 0.10
8 4 0.05
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:84649729 original size:25 final size:25
Alignment explanation
Indices: 84649701--84649758 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
84649691 CATTCACATT
* *
84649701 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTATCACCTGATA
*
84649726 CTGATTCTGATTCTATCACCTGATT
1 CTGATTCTGATTCTATCACCTGATA
*
84649751 TTGATTCT
1 CTGATTCT
84649759 AATTTTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTATCACCTGATA
Found at i:84649748 original size:19 final size:18
Alignment explanation
Indices: 84649726--84649795 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
84649716 TTACCTGATA
84649726 CTGATTCTGATTCTATCAC
1 CTGATTCTGATTCTA-CAC
* *
84649745 CTGATTTTGATTCTA-ATT
1 CTGATTCTGATTCTACA-C
* *
84649763 TTGATTCTGATTCTGCCAC
1 CTGATTCTGATTCT-ACAC
84649782 CTGATTCTGATTCT
1 CTGATTCTGATTCT
84649796 GATTCTCATT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 27 0.66
20 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (18 bp):
CTGATTCTGATTCTACAC
Found at i:84649813 original size:37 final size:37
Alignment explanation
Indices: 84649729--84649805 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
84649719 CCTGATACTG
** * * *
84649729 ATTCTGATTCTATCACCTGATTTTGATTCTAATTTTG
1 ATTCTGATTCTGCCACCTGATTCTGATTCTAATTCTC
*
84649766 ATTCTGATTCTGCCACCTGATTCTGATTCTGATTCTC
1 ATTCTGATTCTGCCACCTGATTCTGATTCTAATTCTC
84649803 ATT
1 ATT
84649806 TTTATTCTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGCCACCTGATTCTGATTCTAATTCTC
Found at i:84651773 original size:27 final size:27
Alignment explanation
Indices: 84651734--84652156 Score: 558
Period size: 27 Copynumber: 15.7 Consensus size: 27
84651724 TGGGCTTTCA
* *
84651734 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
84651761 CAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
84651788 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
84651815 CAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
84651842 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
* *
84651869 CAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
*
84651896 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* * ** *
84651923 TAAAATTACTAAAATATCATTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
*
84651950 TAAAACTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
*
84651977 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
*
84652004 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* * ** *
84652031 TAAAATTACTAAAATATCATTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTG
*
84652058 TAAAACTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
*
84652085 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
*
84652112 TAAAATTACCAAAATACCCCTGATTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
* **
84652139 TGAAATTACTGAAATACC
1 TAAAATTACCAAAATACC
84652157 ATCAACCTGT
Statistics
Matches: 342, Mismatches: 54, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 342 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGGTTTG
Found at i:84652210 original size:27 final size:26
Alignment explanation
Indices: 84651734--84652212 Score: 364
Period size: 27 Copynumber: 17.8 Consensus size: 26
84651724 TGGGCTTTCA
* * *
84651734 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCC-CGATTTG
* *
84651761 CAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCGA-TTTG
* * *
84651788 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCC-CGATTTG
* *
84651815 CAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCGA-TTTG
* * *
84651842 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCC-CGATTTG
* *
84651869 CAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCGA-TTTG
* *
84651896 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCC-CGATTTG
* *** * *
84651923 TAAAATTACTAAAATATCATTGGTTTA
1 TAAAATTACCAAAATA-CCCCGATTTG
* *
84651950 TAAAACTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCC-GATTTG
*
84651977 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCGA-TTTG
* *
84652004 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCC-CGATTTG
* *** * *
84652031 TAAAATTACTAAAATATCATTGGTTTA
1 TAAAATTACCAAAATA-CCCCGATTTG
* *
84652058 TAAAACTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCC-GATTTG
*
84652085 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCGA-TTTG
84652112 TAAAATTACCAAAATACCCCTGATTTG
1 TAAAATTACCAAAATACCCC-GATTTG
* ** * * **
84652139 TGAAATTACTGAAATACCATCAACCTG
1 TAAAATTACCAAAATACC-CCGATTTG
** *
84652166 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTACCAAAATACCC-CGATTTG
* *
84652193 TAAAACTACCAAAGTACCCC
1 TAAAATTACCAAAATACCCC
84652213 CAATTTATAG
Statistics
Matches: 362, Mismatches: 74, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.01
27 355 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCCGATTTG
Found at i:84652281 original size:27 final size:26
Alignment explanation
Indices: 84652251--84652392 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 26
84652241 AATTTACAAA
*
84652251 ATTACCAAAGTACCCTTGTAAGGTAAG
1 ATTACCAAA-TACCCTTGTAGGGTAAG
* *
84652278 ATTACCGAAATACCCCTGTA-GGTTAG
1 ATTACC-AAATACCCTTGTAGGGTAAG
*
84652304 AATTACCGAAATACCTTTGTAGGGT-AG
1 -ATTACC-AAATACCCTTGTAGGGTAAG
* * * *
84652331 AAATACTGAAATACCCCTGTAGGGTAAA
1 -ATTAC-CAAATACCCTTGTAGGGTAAG
* *
84652359 ATTACCAAGATACCCTTGTGGGGTAAA
1 ATTACCAA-ATACCCTTGTAGGGTAAG
84652386 ATTACCA
1 ATTACCA
84652393 TTTTGTCCCT
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.07
27 82 0.85
28 7 0.07
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
ATTACCAAATACCCTTGTAGGGTAAG
Found at i:84652308 original size:54 final size:54
Alignment explanation
Indices: 84652248--84652391 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 54
84652238 TTCAATTTAC
* *
84652248 AAAATTACCAAAGTACCCTTGTAAGGTAAGATTACCGAAATACCCCTGTAGGTT
1 AAAATTACCAAAGTACCCTTGTAGGGTAAGATTACCGAAATACCCCTGTAGGGT
* * * *
84652302 AGAATTACCGAAA-TACCTTTGTAGGGT-AGAAATACTGAAATACCCCTGTAGGGT
1 AAAATTACC-AAAGTACCCTTGTAGGGTAAG-ATTACCGAAATACCCCTGTAGGGT
* *
84652356 AAAATTACC-AAGATACCCTTGTGGGGTAAAATTACC
1 AAAATTACCAAAG-TACCCTTGTAGGGTAAGATTACC
84652392 ATTTTGTCCC
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
52 2 0.03
53 2 0.03
54 65 0.89
55 4 0.05
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTTGTAGGGTAAGATTACCGAAATACCCCTGTAGGGT
Found at i:84653032 original size:27 final size:27
Alignment explanation
Indices: 84653002--84653109 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
84652992 ACTCTGTTAA
* *
84653002 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
84653029 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
84653056 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
84653083 GTGACTCTATCACAATATCTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
84653109 G
1 G
84653110 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.19
27 49 0.71
28 7 0.10
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:84653068 original size:54 final size:53
Alignment explanation
Indices: 84653004--84653109 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
84652994 TCTGTTAAGT
* * * * *
84653004 GGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTGGA
1 GGCTCTGCCACAATATCTGTATCTGGTGACTATACCAC-AATATCTGTTCTGGA
* *
84653058 GGCTCTGCCACAATATCTGTATCTGGTGACTCTATCACAATATCTGTTCTGG
1 GGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTGG
84653110 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTGGA
Found at i:84653236 original size:6 final size:6
Alignment explanation
Indices: 84653227--84653351 Score: 62
Period size: 6 Copynumber: 20.3 Consensus size: 6
84653217 TTGCATTCAC
* *
84653227 ATTCTG ATTCTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG AT--TCTG
* * * * *
84653277 ATTCTG ATTTTG ATTTTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
84653326 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
84653352 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
5 6 0.07
6 73 0.79
7 9 0.10
8 3 0.03
9 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:84653284 original size:25 final size:25
Alignment explanation
Indices: 84653227--84653291 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
84653217 TTGCATTCAC
* *
84653227 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
84653252 ATAT-TGATTCTGATTCTGTCACCTA
1 AT-TCTGATTCTGATTCTGTCACCTA
*
84653277 ATTCTGATTTTGATT
1 ATTCTGATTCTGATT
84653292 TTGATTTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:84653296 original size:37 final size:37
Alignment explanation
Indices: 84653250--84653342 Score: 141
Period size: 37 Copynumber: 2.5 Consensus size: 37
84653240 TTCTGTTACC
* *
84653250 TGATATTGATTCTGATTCTGTCACCTAATTCTGATTT
1 TGATTTTGATTTTGATTCTGTCACCTAATTCTGATTT
*
84653287 TGATTTTGATTTTGATTCTGTCACCTGATTCTGATTT
1 TGATTTTGATTTTGATTCTGTCACCTAATTCTGATTT
* *
84653324 TGATTCTCATTTTGATTCT
1 TGATTTTGATTTTGATTCT
84653343 AGTTCTGATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.18, C:0.15, G:0.14, T:0.53
Consensus pattern (37 bp):
TGATTTTGATTTTGATTCTGTCACCTAATTCTGATTT
Found at i:84656619 original size:54 final size:54
Alignment explanation
Indices: 84656533--84656665 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 54
84656523 ATCTTACGAT
*
84656533 GGGATTACCAGTCTAGGCTAAATCCCTAGTATCGTAAACTCATAAGGTGATATC
1 GGGATTACCAGTCCAGGCTAAATCCCTAGTATCGTAAACTCATAAGGTGATATC
* * *
84656587 GGGATTACTAGTCCAGGCTAAATCTCC-CGTATCGTAAACTCATAAGGTGATGTC
1 GGGATTACCAGTCCAGGCTAAATC-CCTAGTATCGTAAACTCATAAGGTGATATC
*
84656641 AGGATTACCAGTCCAGGCTAAATCC
1 GGGATTACCAGTCCAGGCTAAATCC
84656666 ATTATTGCGA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
53 1 0.01
54 69 0.96
55 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCTAGTATCGTAAACTCATAAGGTGATATC
Found at i:84659620 original size:54 final size:54
Alignment explanation
Indices: 84659556--84659690 Score: 225
Period size: 54 Copynumber: 2.5 Consensus size: 54
84659546 CATCTTACGG
* * *
84659556 CGGGATTACCAGTCCAGACTAAATCCCCTGTATCGTAAACTCATAAGGTGATGT
1 CGGGATTACCAGTCTAGGCTAAATCCCCCGTATCGTAAACTCATAAGGTGATGT
*
84659610 CGGGATTACCAGTCTAGGCTAAATCCCCCGTATTGTAAACTCATAAGGTGATGT
1 CGGGATTACCAGTCTAGGCTAAATCCCCCGTATCGTAAACTCATAAGGTGATGT
*
84659664 TGGGATTACCAGTCTAGGCTAAATCCC
1 CGGGATTACCAGTCTAGGCTAAATCCC
84659691 TTATTGTGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (54 bp):
CGGGATTACCAGTCTAGGCTAAATCCCCCGTATCGTAAACTCATAAGGTGATGT
Found at i:84661319 original size:27 final size:25
Alignment explanation
Indices: 84661288--84661343 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 25
84661278 ATTATAGAAG
84661288 AAAACATCTTATAAGAATAATGAATAC
1 AAAACATC--ATAAGAATAATGAATAC
84661315 -AAA-A-CATAAGAATAATGAATAC
1 AAAACATCATAAGAATAATGAATAC
84661337 AAAACAT
1 AAAACAT
84661344 AAAGAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
22 17 0.65
23 3 0.12
24 2 0.08
25 1 0.04
26 3 0.12
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.21
Consensus pattern (25 bp):
AAAACATCATAAGAATAATGAATAC
Found at i:84661323 original size:22 final size:22
Alignment explanation
Indices: 84661298--84661345 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
84661288 AAAACATCTT
84661298 ATAAGAATAATGAATACAAAAC
1 ATAAGAATAATGAATACAAAAC
84661320 ATAAGAATAATGAATACAAAAC
1 ATAAGAATAATGAATACAAAAC
84661342 ATAA
1 ATAA
84661346 AGAAAACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (22 bp):
ATAAGAATAATGAATACAAAAC
Found at i:84666771 original size:27 final size:26
Alignment explanation
Indices: 84666723--84666782 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
84666713 GCGAGGCTAC
*
84666723 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
84666750 CAGATATTGTGGCTAAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
84666776 CAGATAT
1 CAGATAT
84666783 ATATATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:84666885 original size:67 final size:68
Alignment explanation
Indices: 84666750--84666891 Score: 187
Period size: 67 Copynumber: 2.1 Consensus size: 68
84666740 TCACCAGATA
* * *
84666750 CAGATATTGTGGCTAAGCCACCAGAACAGATATATATATGTGGCAAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG--A-ATATATGTGGCAAAGCCACCAGATTGCAACGA
84666815 GGCTGC
63 GGCTGC
* ** *
84666821 CAGATATTGTGACGGAGCCACCAGAACAG-ATATATGTGGTGAGGCCACCAGATTGCAACGAGGC
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCAAAGCCACCAGATTGCAACGAGGC
84666885 TGC
66 TGC
84666888 CAGA
1 CAGA
84666892 ATGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 38 0.59
71 26 0.41
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCAAAGCCACCAGATTGCAACGAGGC
TGC
Found at i:84667500 original size:26 final size:27
Alignment explanation
Indices: 84667471--84667524 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
84667461 TCACACAAGT
*
84667471 TAGTCATTT-ACGCACGT-GGGGCAAAA
1 TAGTCATTTAACAC-CGTAGGGGCAAAA
84667497 TAGTCATTTAACACCGTAGGGGCAAAA
1 TAGTCATTTAACACCGTAGGGGCAAAA
84667524 T
1 T
84667525 GGTAACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (27 bp):
TAGTCATTTAACACCGTAGGGGCAAAA
Found at i:84667524 original size:27 final size:26
Alignment explanation
Indices: 84667471--84667524 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
84667461 TCACACAAGT
*
84667471 TAGTCATTTACGCACGTGGGGCAAAA
1 TAGTCATTTACACACGTGGGGCAAAA
84667497 TAGTCATTTA-ACACCGTAGGGGCAAAA
1 TAGTCATTTACACA-CGT-GGGGCAAAA
84667524 T
1 T
84667525 GGTAACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 2 0.08
26 13 0.52
27 10 0.40
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (26 bp):
TAGTCATTTACACACGTGGGGCAAAA
Found at i:84667563 original size:27 final size:27
Alignment explanation
Indices: 84667525--84667616 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
84667515 GGGGCAAAAT
* *
84667525 GGTAACTT-TACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAAGGGTATTTC
*
84667552 GGTAATTCTACCCTACAACGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
84667579 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
84667606 GGTAATTCTAC
1 GGTAATTCTAC
84667617 AACTTATCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 55 0.96
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:84671907 original size:15 final size:13
Alignment explanation
Indices: 84671878--84671904 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84671868 GCTCGACAGG
84671878 GACACGCCCGTGT
1 GACACGCCCGTGT
84671891 GACACGCCCGTGT
1 GACACGCCCGTGT
84671904 G
1 G
84671905 TGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:84676356 original size:21 final size:23
Alignment explanation
Indices: 84676316--84676358 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
84676306 TTTGTGAATT
84676316 AGGGACTAAAGTGTCAAAATGTG
1 AGGGACTAAAGTGTCAAAATGTG
*
84676339 AGGG-CTAAATTGT-AAAATGT
1 AGGGACTAAAGTGTCAAAATGT
84676359 TCTAAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.26
Consensus pattern (23 bp):
AGGGACTAAAGTGTCAAAATGTG
Found at i:84693681 original size:27 final size:27
Alignment explanation
Indices: 84693592--84693717 Score: 128
Period size: 27 Copynumber: 4.4 Consensus size: 27
84693582 GAGTCAACTA
* *
84693592 GGCCTTAGCCCATATCAATATTAATCTG
1 GGCC-TAGCCCATATCAGTATCAATCTG
*
84693620 GGCCATAGCCCCT-TACAGTATCAGAGTATACTG
1 GGCC-TAGCCCATAT-CAGTATC--A--AT-CTG
*
84693653 GGCCTAGCCCATATTAGTATCAATCTG
1 GGCCTAGCCCATATCAGTATCAATCTG
84693680 GGCCTAGCCCATATCAGTATCAATCTG
1 GGCCTAGCCCATATCAGTATCAATCTG
84693707 GGCCGTAGCCC
1 GGCC-TAGCCC
84693718 TATAACAAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
27 34 0.41
28 24 0.29
30 2 0.02
32 15 0.18
33 8 0.10
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (27 bp):
GGCCTAGCCCATATCAGTATCAATCTG
Found at i:84694168 original size:44 final size:44
Alignment explanation
Indices: 84694105--84694191 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
84694095 CTTGAAGGGC
*
84694105 GTAATCGTAAACTTACCCCTTTAGGGGTATTATGATAATTCTAT
1 GTAATCGTAAACTTACCCCTTTAGGGGTATTACGATAATTCTAT
84694149 GTAATCGTAAACTTACCCCTTTAGGGGTATTACGATAATTCTA
1 GTAATCGTAAACTTACCCCTTTAGGGGTATTACGATAATTCTA
84694192 CCTTACAGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (44 bp):
GTAATCGTAAACTTACCCCTTTAGGGGTATTACGATAATTCTAT
Found at i:84698424 original size:33 final size:33
Alignment explanation
Indices: 84698381--84698450 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
84698371 CCGTGTAGCC
*
84698381 CACACGGCCTAAATTGACCTTCGCTGTATGGAT
1 CACACAGCCTAAATTGACCTTCGCTGTATGGAT
* * *
84698414 CACACAGCCTAAATTGTCCTTGGCTGTGTGGAT
1 CACACAGCCTAAATTGACCTTCGCTGTATGGAT
84698447 CACA
1 CACA
84698451 TGGCCTGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (33 bp):
CACACAGCCTAAATTGACCTTCGCTGTATGGAT
Found at i:84700005 original size:29 final size:29
Alignment explanation
Indices: 84699967--84700031 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
84699957 TTTCTTTTCT
84699967 TTTTCT-CTCCATCTACCTTCCCCTCTTC
1 TTTTCTCCTCCATCTACCTTCCCCTCTTC
*
84699995 TTTTCTCCTCCATCTACCTTCTCCTCTTC
1 TTTTCTCCTCCATCTACCTTCCCCTCTTC
84700024 TTTTCTCC
1 TTTTCTCC
84700032 ATAGCTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 6 0.17
29 29 0.83
ACGTcount: A:0.06, C:0.45, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTTCTCCTCCATCTACCTTCCCCTCTTC
Found at i:84702377 original size:29 final size:29
Alignment explanation
Indices: 84702338--84702416 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
84702328 CTTAATAATC
*
84702338 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
84702368 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
84702397 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
84702417 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:84717877 original size:43 final size:42
Alignment explanation
Indices: 84717815--84717968 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 42
84717805 CAATGCAAAC
* *
84717815 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACGTGGTCTTACACGAAATCAAATA-CGATGCCACT
* *
84717858 GTCCCAGACAG-GGTTTTACACGAAATCAAATACGATGCTGA-T
1 GTCCCAGAC-GTGGTCTTACACGAAATCAAATACGATGC-CACT
* * * *
84717900 ATCCCAAACATGG-CATTACACATAAATCATAAGT-CGATGCCAAC-
1 GTCCCAGACGTGGTC-TTACAC-GAAATCA-AA-TACGATGCC-ACT
*
84717944 ATCCCAGACGTGGTCTTACACGAAA
1 GTCCCAGACGTGGTCTTACACGAAA
84717969 ACACATATCG
Statistics
Matches: 88, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
42 22 0.25
43 37 0.42
44 27 0.31
45 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACACGAAATCAAATACGATGCCACT
Found at i:84723182 original size:40 final size:40
Alignment explanation
Indices: 84723087--84723304 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
84723077 TGGATGATAA
* *
84723087 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGAATAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
*
84723128 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84723168 CCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84723208 CCGGGCTAAGTCACGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84723248 CCGGGCTATGTCTCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
84723287 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84723305 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 14 0.09
39 16 0.10
40 101 0.64
41 24 0.15
42 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84730272 original size:36 final size:36
Alignment explanation
Indices: 84730225--84730295 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
84730215 TAAGGAGGAT
*
84730225 TTGTGATTGATGCCATTTGCATTCTAAATGTGAAGC
1 TTGTGATTGATGCCATTTGCATGCTAAATGTGAAGC
84730261 TTGTGATTGATGCCATTTGCATGCTAAATGTGAAG
1 TTGTGATTGATGCCATTTGCATGCTAAATGTGAAG
84730296 TTTTGTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (36 bp):
TTGTGATTGATGCCATTTGCATGCTAAATGTGAAGC
Found at i:84731585 original size:341 final size:341
Alignment explanation
Indices: 84730960--84731631 Score: 1317
Period size: 341 Copynumber: 2.0 Consensus size: 341
84730950 TAAGTTTTCG
84730960 AGTAACGAGACTTAGTTTACGATTTGATTAAGTCTGACGTATGAGCATAACAAATATACGGTGAT
1 AGTAACGAGACTTAGTTTACGATTTGATTAAGTCTGACGTATGAGCATAACAAATATACGGTGAT
84731025 ATGATGACTCTACTCGAATTATATGTTGAGTTAATTAATATAGACGTATGACGGGTAGCCGTATG
66 ATGATGACTCTACTCGAATTATATGTTGAGTTAATTAATATAGACGTATGACGGGTAGCCGTATG
84731090 TGCATAGAGATCCTGTCATAAAGCAAACTAAACCATGCTGTTTGTATGTGGCTAGTGAGCCGAAA
131 TGCATAGAGATCCTGTCATAAAGCAAACTAAACCATGCTGTTTGTATGTGGCTAGTGAGCCGAAA
*
84731155 ATGGGATTGCTTAATACGTGACTTGTGTTTGAACTCTAATTATGAAAATGAAATATAGATGTGTC
196 ATGAGATTGCTTAATACGTGACTTGTGTTTGAACTCTAATTATGAAAATGAAATATAGATGTGTC
84731220 ATGATTTATTGATATGTACATGAATATTTGGATGATAAACGGGCTAAGTCCCGAAGGCATTTTGC
261 ATGATTTATTGATATGTACATGAATATTTGGATGATAAACGGGCTAAGTCCCGAAGGCATTTTGC
84731285 GCTAGTGAATAGTTCT
326 GCTAGTGAATAGTTCT
84731301 AGTAACGAGACTTAGTTTACGATTTGATTAAGTCTGACGTATGAGCATAACAAATATACGGTGAT
1 AGTAACGAGACTTAGTTTACGATTTGATTAAGTCTGACGTATGAGCATAACAAATATACGGTGAT
84731366 ATGATGACTCTACTCGAATTATATGTTGAGTTAATTAATATAGACGTATGACGGGTAGCCGTATG
66 ATGATGACTCTACTCGAATTATATGTTGAGTTAATTAATATAGACGTATGACGGGTAGCCGTATG
84731431 TGCATAGAGATCCTGTCATAAAGCAAACTAAACCATGCTGTTTGTATGTGGCTAGTGAGCCGAAA
131 TGCATAGAGATCCTGTCATAAAGCAAACTAAACCATGCTGTTTGTATGTGGCTAGTGAGCCGAAA
84731496 ATGAGATTGCTTAATACGTGACTTGTGTTTGAACTCTAATTATGAAAATGAAATATAGATGTGTC
196 ATGAGATTGCTTAATACGTGACTTGTGTTTGAACTCTAATTATGAAAATGAAATATAGATGTGTC
* *
84731561 ATGATTTATTGATATGTGCATGAATATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTTGC
261 ATGATTTATTGATATGTACATGAATATTTGGATGATAAACGGGCTAAGTCCCGAAGGCATTTTGC
84731626 GCTAGT
326 GCTAGT
84731632 TACTATATCC
Statistics
Matches: 328, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
341 328 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (341 bp):
AGTAACGAGACTTAGTTTACGATTTGATTAAGTCTGACGTATGAGCATAACAAATATACGGTGAT
ATGATGACTCTACTCGAATTATATGTTGAGTTAATTAATATAGACGTATGACGGGTAGCCGTATG
TGCATAGAGATCCTGTCATAAAGCAAACTAAACCATGCTGTTTGTATGTGGCTAGTGAGCCGAAA
ATGAGATTGCTTAATACGTGACTTGTGTTTGAACTCTAATTATGAAAATGAAATATAGATGTGTC
ATGATTTATTGATATGTACATGAATATTTGGATGATAAACGGGCTAAGTCCCGAAGGCATTTTGC
GCTAGTGAATAGTTCT
Found at i:84731684 original size:40 final size:40
Alignment explanation
Indices: 84731599--84731776 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
84731589 TGGATGATAA
84731599 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTATAT
84731640 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84731680 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84731720 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
84731759 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84731777 TACTTGGCTT
Statistics
Matches: 128, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
38 15 0.12
39 15 0.12
40 70 0.55
41 24 0.19
42 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84731943 original size:45 final size:45
Alignment explanation
Indices: 84731879--84731967 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
84731869 GAATTGTTGA
84731879 TCCCTTACAATTAGTATTCGCTCAGTCGATAAATGAACTACCGGT
1 TCCCTTACAATTAGTATTCGCTCAGTCGATAAATGAACTACCGGT
*
84731924 TCCCTTACAATTAGTATTCGCTCAGTCGATAAATGAGCTACCGG
1 TCCCTTACAATTAGTATTCGCTCAGTCGATAAATGAACTACCGG
84731968 CCTTTGGCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (45 bp):
TCCCTTACAATTAGTATTCGCTCAGTCGATAAATGAACTACCGGT
Found at i:84739181 original size:10 final size:10
Alignment explanation
Indices: 84739141--84739183 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
84739131 TATTGAAACA
*
84739141 TATGCTTTGG
1 TATGATTTGG
84739151 TATGATTTTGG
1 TATGA-TTTGG
*
84739162 TTTAGATTTGG
1 TAT-GATTTGG
84739173 TATGATTTGG
1 TATGATTTGG
84739183 T
1 T
84739184 TAGTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:84740929 original size:28 final size:29
Alignment explanation
Indices: 84740897--84740995 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
84740887 ATAATAAGCC
* *
84740897 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
84740925 CGCACACTTAATGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* *
84740953 CGCACACTTAGTGC-TATACAATTTCAACCT
1 CGCACACTTAGTGCTTATATAA--TCAAACT
84740983 -GCACACTTAGTGC
1 CGCACACTTAGTGC
84740996 CAATCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 41 0.66
29 13 0.21
30 6 0.10
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:84747958 original size:40 final size:40
Alignment explanation
Indices: 84747874--84748065 Score: 196
Period size: 40 Copynumber: 4.8 Consensus size: 40
84747864 TCGAATGATG
* * * *
84747874 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAT
*
84747913 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
84747954 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* *
84747993 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
84748032 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
84748066 AGCTATATCC
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
39 35 0.27
40 85 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:84748010 original size:79 final size:81
Alignment explanation
Indices: 84747874--84748056 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
84747864 TCGAATGATG
* *
84747874 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
84747938 TGTACGAGTTACTA-A
66 TGTACGAGTTACTATA
* * * **
84747953 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
84748015 TTTGTGCGAGTTACTATA
64 TTTGTACGAGTTACTATA
* *
84748033 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
84748057 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGTTACTATA
Found at i:84748080 original size:79 final size:79
Alignment explanation
Indices: 84747927--84748091 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
84747917 GGACTAAGAT
* **
84747927 CCGAAGGCATTTGTACGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
84747992 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
84748006 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
84748069 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
84748085 CCGAAGG
1 CCGAAGG
84748092 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:84752364 original size:42 final size:43
Alignment explanation
Indices: 84752263--84752415 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 43
84752253 TGTGTTTTTG
* * * * * * *
84752263 TGTAAGACCACGTTTGAGATGTTGGCAGCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGACATCGA-TATTTGATTT-CA
84752307 TGTAAGACCACGTCTGGGACGTTGACATC-ATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGACATCGATATTTGATTTCA
** * * *
84752349 TGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGGTTACA
1 TGTAAGACCAC-GTCTGGGACGTTGACATCGATATTTGATTTCA
84752392 TGTAAGACCACGTCTGGGACGTTG
1 TGTAAGACCACGTCTGGGACGTTG
84752416 GCATTGTACG
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 39 0.43
44 25 0.27
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGACATCGATATTTGATTTCA
Found at i:84752418 original size:43 final size:42
Alignment explanation
Indices: 84752302--84752419 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
84752292 GACTTATGAT
* *
84752302 TTACGTGTAAGACCACGTCTGGGACGTTGACATCATATTTGA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATCATATTTGA
* ** *
84752344 TTTCATGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGG
1 TTACATGTAAGACCAC-GTCTGGGACGTTGGCATC-ATATTTGA
84752387 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
84752420 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 27 0.42
43 35 0.55
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACGTTGGCATCATATTTGA
Found at i:84752587 original size:18 final size:18
Alignment explanation
Indices: 84752564--84752598 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
84752554 AAAGGTAAGA
84752564 ATATG-TATAAGTGATGAT
1 ATATGTTATAAGT-ATGAT
84752582 ATATGTTATAAGTATGA
1 ATATGTTATAAGTATGA
84752599 GAAAATATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
ATATGTTATAAGTATGAT
Found at i:84753172 original size:38 final size:38
Alignment explanation
Indices: 84753129--84753204 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
84753119 TTCATCCTTT
84753129 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84753167 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84753205 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:84754486 original size:40 final size:40
Alignment explanation
Indices: 84754392--84754536 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
84754382 TACTCGAATG
*
84754392 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
84754433 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
84754473 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
84754513 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
84754537 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:84755214 original size:50 final size:50
Alignment explanation
Indices: 84755139--84755239 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
84755129 CGTTTTGTAT
*
84755139 GTTGTCCGTCGAGAGGTATGGAAATGTTGGTAACGGTTAGCCATGGGAAG
1 GTTGTCCGTCGAGAGGTATGAAAATGTTGGTAACGGTTAGCCATGGGAAG
84755189 GTTGTCCGTCGAGAGGTATGAAAATGTTGGTAACGGTTAGCCATGGGAAG
1 GTTGTCCGTCGAGAGGTATGAAAATGTTGGTAACGGTTAGCCATGGGAAG
84755239 G
1 G
84755240 GTTATTCTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.26
Consensus pattern (50 bp):
GTTGTCCGTCGAGAGGTATGAAAATGTTGGTAACGGTTAGCCATGGGAAG
Found at i:84757725 original size:41 final size:41
Alignment explanation
Indices: 84757680--84757762 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
84757670 TTTGGATTGG
84757680 TTGACCGTGCATGATGCAGTTGTGAATTGCAAAAGCAAGAC
1 TTGACCGTGCATGATGCAGTTGTGAATTGCAAAAGCAAGAC
*
84757721 TTGACCGTGCATGATGCGGTTGTGAATTGCAAAAGCAAGAC
1 TTGACCGTGCATGATGCAGTTGTGAATTGCAAAAGCAAGAC
84757762 T
1 T
84757763 ATGGATTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (41 bp):
TTGACCGTGCATGATGCAGTTGTGAATTGCAAAAGCAAGAC
Found at i:84761325 original size:38 final size:38
Alignment explanation
Indices: 84761282--84761623 Score: 657
Period size: 38 Copynumber: 9.0 Consensus size: 38
84761272 TTCATCCTTT
84761282 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761320 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
***
84761358 GGAATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761396 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761434 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761472 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761510 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761548 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761586 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
84761624 GGAGTTCTTG
Statistics
Matches: 298, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 298 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:84762845 original size:40 final size:39
Alignment explanation
Indices: 84762770--84762895 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 39
84762760 CTATGTCCCA
* *
84762770 AAGGCTTTTGTGCTAAGCGACTACATCCGGACTAAGATCCG
1 AAGGCATTTGTGCT-AGCGACTATATCCGG-CTAAGATCCG
84762811 AAGGCATTTGTGCTAGCGACTATATCCGTGCTAAG-TCCCG
1 AAGGCATTTGTGCTAGCGACTATATCCG-GCTAAGAT-CCG
* * * * *
84762851 AAGGCATTTATGCTAGTGACCATATCCGGGTTAAGACCCG
1 AAGGCATTTGTGCTAGCGACTATATCC-GGCTAAGATCCG
84762891 AAGGC
1 AAGGC
84762896 CTTGTGCGAG
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 58 0.78
41 15 0.20
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (39 bp):
AAGGCATTTGTGCTAGCGACTATATCCGGCTAAGATCCG
Found at i:84763305 original size:40 final size:40
Alignment explanation
Indices: 84763211--84763352 Score: 171
Period size: 40 Copynumber: 3.5 Consensus size: 40
84763201 TACTCGAATG
*
84763211 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
84763252 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
84763292 ATATCCGGGCTAAGTCCCGAAGCCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
**
84763332 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
84763353 ATGCTTGATT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 14 0.16
40 45 0.51
41 28 0.32
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:84763311 original size:460 final size:460
Alignment explanation
Indices: 84762451--84763339 Score: 1679
Period size: 460 Copynumber: 1.9 Consensus size: 460
84762441 TGATTAAATC
84762451 AATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGAAAGGAAAAAG
1 AATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGAAAGGAAAAAG
84762516 TGGTCGAATAGCCATCGGAATCCTTCGACAACATCCGAGGTAAGTTTTCGAGTAATGGGACTTAA
66 TGGTCGAATAGCCATCGGAATCCTTCGACAACATCCGAGGTAAGTTTTCGAGTAATGGGACTTAA
*
84762581 GTTATGATTCGATTAGATTATGTCTTAAGTAAACCAAAATCATGCTCTTATATGTGGCTATTGAG
131 ATTATGATTCGATTAGATTATGTCTTAAGTAAACCAAAATCATGCTCTTATATGTGGCTATTGAG
*
84762646 CCGAAATTGTAAATGTGATAAGTGTCTTGTGTTTGAGCTTTGGTAATGAAAATGAAATATGAACG
196 CCGAAATTGTAAATGTGATAAGTGTCTTGCGTTTGAGCTTTGGTAATGAAAATGAAATATGAACG
* *
84762711 TGTCATGATTTATTGATATATGTGCATGGTTACTCGAATGATATCCTGGCTATGTCCCAAAGGCT
261 TGTCATGATTTATTGATATATGTGCATGGTTACTCGAATGATATCCGGGCTAAGTCCCAAAGGCT
*
84762776 TTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGTG
326 TTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGG
*
84762841 CTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGGTTAAGACCCGAAGGCCTTGTGCGAG
391 CTAAGTCCCGAAGCCATTTATGCTAGTGACCATATCCGGGTTAAGACCCGAAGGCCTTGTGCGAG
84762906 TGGTT
456 TGGTT
*
84762911 AATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGGAAGGAAAAAG
1 AATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGAAAGGAAAAAG
*
84762976 TGGTCGAATAGCCATCGGAATCGTTCGACAACATCCGAGGTAAGTTTTCGAGTAATGGGACTTAA
66 TGGTCGAATAGCCATCGGAATCCTTCGACAACATCCGAGGTAAGTTTTCGAGTAATGGGACTTAA
*
84763041 ATTATGATTCGATTAGATTATGTCTTAAGTAAATCAAAATCATGCTCTTATATGTGGCTATTGAG
131 ATTATGATTCGATTAGATTATGTCTTAAGTAAACCAAAATCATGCTCTTATATGTGGCTATTGAG
*
84763106 CCGAAATTGTAAATGTGATAAGTGTCTTGCGTTTGAGCTTTGGTAATGAAAATGAAATATGAATG
196 CCGAAATTGTAAATGTGATAAGTGTCTTGCGTTTGAGCTTTGGTAATGAAAATGAAATATGAACG
*
84763171 TGTCATGATTTATTGATATATGTGCATGGTTACTCGAATGATATCCGGGCTAAGTCCCGAAGGCT
261 TGTCATGATTTATTGATATATGTGCATGGTTACTCGAATGATATCCGGGCTAAGTCCCAAAGGCT
84763236 TTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGG
326 TTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGG
84763301 CTAAGTCCCGAAGCCATTTATGCTAGTGACCATATCCGG
391 CTAAGTCCCGAAGCCATTTATGCTAGTGACCATATCCGG
84763340 CTAAACCCCG
Statistics
Matches: 418, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
460 418 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (460 bp):
AATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGAAAGGAAAAAG
TGGTCGAATAGCCATCGGAATCCTTCGACAACATCCGAGGTAAGTTTTCGAGTAATGGGACTTAA
ATTATGATTCGATTAGATTATGTCTTAAGTAAACCAAAATCATGCTCTTATATGTGGCTATTGAG
CCGAAATTGTAAATGTGATAAGTGTCTTGCGTTTGAGCTTTGGTAATGAAAATGAAATATGAACG
TGTCATGATTTATTGATATATGTGCATGGTTACTCGAATGATATCCGGGCTAAGTCCCAAAGGCT
TTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGG
CTAAGTCCCGAAGCCATTTATGCTAGTGACCATATCCGGGTTAAGACCCGAAGGCCTTGTGCGAG
TGGTT
Found at i:84763862 original size:202 final size:202
Alignment explanation
Indices: 84763516--84763920 Score: 765
Period size: 202 Copynumber: 2.0 Consensus size: 202
84763506 TGGCTAAGTT
*
84763516 GATCTTTTGTGTATGAACATAAGGGTTGGTAATGTGAAGTAAGTATGATATTGAAATTTTGGGCA
1 GATCTTTTGTGTATGAACATAAGGGTTGGTAATGTGAAGTAAGTATGATATTGAAAATTTGGGCA
84763581 TATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATCCCTTGCTCAAA
66 TATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATCCCTTGCTCAAA
* *
84763646 ACTTACTAAGCATAAATTTCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTGGCTCGTC
131 ACTTACTAAGCATAAATTGCTTACTCCGTTTCTTTATTTCTCTGTTTTATAGATTTTGGCTCGTC
84763711 AGCTATC
196 AGCTATC
*
84763718 GATCTTTTGTGTATGAACATAAGGGTTGGTAATGTGAAGTAAGTATGATATTGAAAATTTGTGCA
1 GATCTTTTGTGTATGAACATAAGGGTTGGTAATGTGAAGTAAGTATGATATTGAAAATTTGGGCA
84763783 TATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATCCCTTGCTCAAA
66 TATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATCCCTTGCTCAAA
*
84763848 ACTTACTAAGCATAAGTTGCTTACTCCGTTTCTTTATTTCTCTGTTTTATAGATTTTGGCTCGTC
131 ACTTACTAAGCATAAATTGCTTACTCCGTTTCTTTATTTCTCTGTTTTATAGATTTTGGCTCGTC
84763913 AGCTATC
196 AGCTATC
84763920 G
1 G
84763921 GACTCGGGAT
Statistics
Matches: 198, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
202 198 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (202 bp):
GATCTTTTGTGTATGAACATAAGGGTTGGTAATGTGAAGTAAGTATGATATTGAAAATTTGGGCA
TATGAAATTATCCGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATCCCTTGCTCAAA
ACTTACTAAGCATAAATTGCTTACTCCGTTTCTTTATTTCTCTGTTTTATAGATTTTGGCTCGTC
AGCTATC
Found at i:84767060 original size:39 final size:39
Alignment explanation
Indices: 84767006--84767082 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
84766996 ATGCATAACA
**
84767006 CATATTAATGATGTTCAAACTATGACATAGTTAAAGACT
1 CATATTAATGATGTTCAAACTATGACATAAATAAAGACT
84767045 CATATTAATGATGTTCAAACTATGACATAAATAAAGAC
1 CATATTAATGATGTTCAAACTATGACATAAATAAAGAC
84767083 ACAAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (39 bp):
CATATTAATGATGTTCAAACTATGACATAAATAAAGACT
Found at i:84772560 original size:15 final size:15
Alignment explanation
Indices: 84772540--84772573 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
84772530 TAAAAATAAG
84772540 ATAACTTTTAAAGGA
1 ATAACTTTTAAAGGA
84772555 ATAACTTTTAAAGGA
1 ATAACTTTTAAAGGA
84772570 ATAA
1 ATAA
84772574 TTTGGATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (15 bp):
ATAACTTTTAAAGGA
Found at i:84777949 original size:18 final size:18
Alignment explanation
Indices: 84777926--84777987 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
84777916 CAAATTAATT
84777926 AAAATTACATAAATGAAA
1 AAAATTACATAAATGAAA
* **
84777944 AAAATTTAAATAATAT-TCA
1 AAAA-TTACATAA-ATGAAA
84777963 AAAATTACATAAATGGAAA
1 AAAATTACATAAAT-GAAA
84777982 AAAATT
1 AAAATT
84777988 TAAATAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 2 0.06
18 11 0.32
19 19 0.56
20 2 0.06
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATTACATAAATGAAA
Found at i:84777956 original size:19 final size:19
Alignment explanation
Indices: 84777934--84777994 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
84777924 TTAAAATTAC
84777934 ATAAATGAAAAAAATTTAA
1 ATAAATGAAAAAAATTTAA
** *
84777953 ATAATAT-TCAAAAA-TTAC
1 ATAA-ATGAAAAAAATTTAA
84777971 ATAAATGGAAAAAAATTTAA
1 ATAAAT-GAAAAAAATTTAA
84777991 ATAA
1 ATAA
84777995 TATTCAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.06
18 7 0.22
19 14 0.44
20 9 0.28
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAATGAAAAAAATTTAA
Found at i:84777972 original size:37 final size:38
Alignment explanation
Indices: 84777926--84778007 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
84777916 CAAATTAATT
84777926 AAAATTACATAAAT-GAAAAAAATTTAAATAATATTCA
1 AAAATTACATAAATGGAAAAAAATTTAAATAATATTCA
84777963 AAAATTACATAAATGGAAAAAAATTTAAATAATATTCA
1 AAAATTACATAAATGGAAAAAAATTTAAATAATATTCA
84778001 AAAATTA
1 AAAATTA
84778008 AAATTAACCC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 14 0.32
38 30 0.68
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (38 bp):
AAAATTACATAAATGGAAAAAAATTTAAATAATATTCA
Found at i:84778003 original size:19 final size:19
Alignment explanation
Indices: 84777943--84778011 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
84777933 CATAAATGAA
84777943 AAAAATTTAAATAATATTC
1 AAAAATTTAAATAATATTC
* **
84777962 AAAAA-TTACATAA-ATGGAA
1 AAAAATTTAAATAATAT--TC
84777981 AAAAATTTAAATAATATTC
1 AAAAATTTAAATAATATTC
*
84778000 AAAAATTAAAAT
1 AAAAATTTAAAT
84778012 TAACCCTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 2 0.05
18 7 0.18
19 21 0.54
20 7 0.18
21 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAATTTAAATAATATTC
Found at i:84778202 original size:21 final size:21
Alignment explanation
Indices: 84778169--84778218 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
84778159 TAAAGAGAGC
* *
84778169 TTTGAGAAATTTAATGG-GAAA
1 TTTGAGAGATTT-AGGGAGAAA
*
84778190 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAGATTTAGGGAGAAA
84778211 TTTGAGAG
1 TTTGAGAG
84778219 TTTTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (21 bp):
TTTGAGAGATTTAGGGAGAAA
Found at i:84779278 original size:61 final size:60
Alignment explanation
Indices: 84779183--84779303 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 60
84779173 TGTCTTTGAG
*
84779183 AGGGGGGGGGGGGGTTCGCCTTCGGCCAGCCAGAATAGAACAGAACTTACGTTGGGCCTA
1 AGGGGGGGGGGGGGTTCGCCTTCGGCCAGCCAGAATAGAACAGAACTTAAGTTGGGCCTA
*
84779243 NAGGGGGGGGGGGGTTTCGCCTTCGGCCAGCCAGAATAGAACAGAACTTAAGTTGGGCCTA
1 -AGGGGGGGGGGGGGTTCGCCTTCGGCCAGCCAGAATAGAACAGAACTTAAGTTGGGCCTA
84779304 CTCTTGTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.22, C:0.21, G:0.39, T:0.17
Consensus pattern (60 bp):
AGGGGGGGGGGGGGTTCGCCTTCGGCCAGCCAGAATAGAACAGAACTTAAGTTGGGCCTA
Found at i:84780110 original size:22 final size:21
Alignment explanation
Indices: 84780075--84780117 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
84780065 CATCACATAA
84780075 TATCTTAAAGTTTACGTTTTTC
1 TATCTTAAAGTTTAC-TTTTTC
* *
84780097 TATCTTGAATTTTACTTTTTC
1 TATCTTAAAGTTTACTTTTTC
84780118 AAATGATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.58
Consensus pattern (21 bp):
TATCTTAAAGTTTACTTTTTC
Found at i:84783015 original size:26 final size:25
Alignment explanation
Indices: 84782986--84783043 Score: 91
Period size: 24 Copynumber: 2.3 Consensus size: 25
84782976 ATTACTATTT
84782986 GATGTAATTGACTTTTTATGAAAGAA
1 GATGTAATTG-CTTTTTATGAAAGAA
*
84783012 GATGTAA-TGGTTTTTATGAAAGAA
1 GATGTAATTGCTTTTTATGAAAGAA
84783036 GATGTAAT
1 GATGTAAT
84783044 GGTTACCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.70
25 2 0.07
26 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (25 bp):
GATGTAATTGCTTTTTATGAAAGAA
Found at i:84783029 original size:24 final size:24
Alignment explanation
Indices: 84782998--84783047 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
84782988 TGTAATTGAC
84782998 TTTTTATGAAAGAAGATGTAATGG
1 TTTTTATGAAAGAAGATGTAATGG
84783022 TTTTTATGAAAGAAGATGTAATGG
1 TTTTTATGAAAGAAGATGTAATGG
84783046 TT
1 TT
84783048 ACCATGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (24 bp):
TTTTTATGAAAGAAGATGTAATGG
Found at i:84783054 original size:24 final size:24
Alignment explanation
Indices: 84783003--84783054 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
84782993 TTGACTTTTT
***
84783003 ATGAAAGAAGATGTAATGGTTTTT
1 ATGAAAGAAGATGTAATGGTTACC
84783027 ATGAAAGAAGATGTAATGGTTACC
1 ATGAAAGAAGATGTAATGGTTACC
84783051 ATGA
1 ATGA
84783055 GATAAAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (24 bp):
ATGAAAGAAGATGTAATGGTTACC
Found at i:84787547 original size:28 final size:29
Alignment explanation
Indices: 84787516--84787634 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 29
84787506 GTGAGCATGA
* *
84787516 ATAT-AATATGATTTGGCCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
84787544 ATATGAATGTGAATTGGGCTTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
84787573 ATATGAATGTGAATTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
84787602 ATTTGAATAAG-ATTGGGCCTAATGGGCT
1 ATATGAATATGAATTGGGCCTAATGGGCC
84787630 ATATG
1 ATATG
84787635 CATGTATGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
28 23 0.30
29 53 0.70
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:84799018 original size:13 final size:13
Alignment explanation
Indices: 84799002--84799026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84798992 CTTTGCATAT
84799002 TGTCTTCAACAGG
1 TGTCTTCAACAGG
84799015 TGTCTTCAACAG
1 TGTCTTCAACAG
84799027 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:84804436 original size:30 final size:30
Alignment explanation
Indices: 84804378--84804436 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
84804368 ATTTTCGAGC
* **
84804378 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
*
84804408 CTAGGGGCAAAATGGTTATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
84804437 ATATGCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:84804934 original size:46 final size:46
Alignment explanation
Indices: 84804759--84804931 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
84804749 GGGTTACTGT
* * * *
84804759 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GACGA
* * *
84804805 GAGCCAGTGTAAGACCATGTCTGGGACATTACATCAGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCAGCCTCGAGACGA
* * * * *
84804853 GTGCTAGTATAAGACATATCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACG-A
*
84804900 -AGCCAGTGTAAGACATGCCTGGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
84804932 GGCTACGAGA
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 54 0.52
47 26 0.25
48 22 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGA
Found at i:84814633 original size:47 final size:48
Alignment explanation
Indices: 84814562--84814825 Score: 217
Period size: 47 Copynumber: 5.6 Consensus size: 48
84814552 AGGGTAAGGT
* * *
84814562 GCCGATGCCATGTCCTAGACATGGTCTTACGCTGGCTCAT-ATCTCAA
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * **
84814609 GTCGATGGCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTTGTA
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAA
* * * ** * *
84814657 GTCTAT-GCATATCCCAGACAT-GTCTTACACTGGCTTGT-GTCTCGAG
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AA
* * *
84814703 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGC-CCTCGTCTCAA
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * ***
84814748 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 -GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAA
84814797 GCCGAT-GCATGTCCCAGACAT-GTCTTACA
1 GCCGATGGCATGTCCCAGACATGGTCTTACA
84814826 ATAGCTCACA
Statistics
Matches: 177, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.02
46 66 0.37
47 78 0.44
48 28 0.16
49 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
Found at i:84814822 original size:140 final size:141
Alignment explanation
Indices: 84814562--84814825 Score: 354
Period size: 140 Copynumber: 1.9 Consensus size: 141
84814552 AGGGTAAGGT
* * * * *
84814562 GCCGATGCCATGTCCTAGACATGGTCTTACGCTGGCTCATATCTCAAGTCGATGGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
** * *
84814627 ACATGGTCTTACACTGACTATCATCTTGTAGTCTATGCATATCCCAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATAATGTAGCCGATGCATATCCCAGACATGTCTTACACTGGCT
84814692 TGTGTCTCGAG
131 TGTGTCTCGAG
* *
84814703 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CCTCGTCTCAATGCCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCC
* * * *
84814765 AGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACA
64 AGACATGGTCTTACACTGACTATCATAATGTAGCCGATGCATATCCCAGACATGTCTTACA
84814826 ATAGCTCACA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 2 0.02
139 17 0.16
140 80 0.75
141 7 0.07
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCATAATGTAGCCGATGCATATCCCAGACATGTCTTACACTGGCT
TGTGTCTCGAG
Found at i:84819568 original size:28 final size:28
Alignment explanation
Indices: 84819527--84819642 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
84819517 GGAGGAAGCG
* *
84819527 TTCTGGTGGATCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
84819555 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
84819583 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * **
84819611 ATCTGGTGACTCTATCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
84819637 TTCTGG
1 TTCTGG
84819643 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.06
27 7 0.09
28 65 0.84
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:84823213 original size:13 final size:13
Alignment explanation
Indices: 84823195--84823220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84823185 ATATTGTAAT
84823195 TATTTTATGTTAA
1 TATTTTATGTTAA
84823208 TATTTTATGTTAA
1 TATTTTATGTTAA
84823221 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:84824643 original size:40 final size:40
Alignment explanation
Indices: 84824595--84824705 Score: 179
Period size: 40 Copynumber: 2.8 Consensus size: 40
84824585 GGACTAAGAT
84824595 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
84824635 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
84824675 CTGAAGGCATTTGTGCGAGTTG-CTATATCCG
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCG
84824706 ACTAAATCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
40 64 0.97
41 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:84831269 original size:13 final size:13
Alignment explanation
Indices: 84831251--84831276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84831241 ATATTATAAT
84831251 TATTTTATGTTAA
1 TATTTTATGTTAA
84831264 TATTTTATGTTAA
1 TATTTTATGTTAA
84831277 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:84832695 original size:40 final size:40
Alignment explanation
Indices: 84832647--84832917 Score: 472
Period size: 40 Copynumber: 6.8 Consensus size: 40
84832637 GGACTAAGAT
84832647 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
84832687 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
84832727 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
84832767 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
84832807 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
84832847 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
84832887 CTGAAGGCATTTGTGCGAGTTG-CTATATCCG
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCG
84832918 ACTAAATCCT
Statistics
Matches: 220, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 218 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:84833183 original size:45 final size:45
Alignment explanation
Indices: 84833119--84833208 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
84833109 GAATATAATG
84833119 GTTGAAACGTGAAGTAAACATGACTTTGGGAATATGCGTATATGC
1 GTTGAAACGTGAAGTAAACATGACTTTGGGAATATGCGTATATGC
*
84833164 GTTGAAGCGTGAAGTAAACATGACTTTGGGAATATGCGTATATGC
1 GTTGAAACGTGAAGTAAACATGACTTTGGGAATATGCGTATATGC
84833209 AATTGTTCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (45 bp):
GTTGAAACGTGAAGTAAACATGACTTTGGGAATATGCGTATATGC
Found at i:84834382 original size:166 final size:166
Alignment explanation
Indices: 84834103--84834419 Score: 607
Period size: 166 Copynumber: 1.9 Consensus size: 166
84834093 CGAACCTAGA
84834103 AACAGGGGAGACTTTAACTAATAAACTGTACTAATTGGCCTGACGAAAAATTCAAAAAAAAAATT
1 AACAGGGGAGACTTTAACTAATAAACTGTACTAATTGGCCTGACGAAAAATTCAAAAAAAAAATT
84834168 TGTAAATGCATATATGAGTCTAGTTTCAGGGAAAAATCACGAAGCTGATTTTCGAGTTGTGAAAC
66 TGTAAATGCATATATGAGTCTAGTTTCAGGGAAAAATCACGAAGCTGATTTTCGAGTTGTGAAAC
84834233 TCAAGACATGATTTTTAAGGTGACAGTGACGCATGT
131 TCAAGACATGATTTTTAAGGTGACAGTGACGCATGT
* *
84834269 AACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCTGACGAAAAATTCAAAAAAAAAATT
1 AACAGGGGAGACTTTAACTAATAAACTGTACTAATTGGCCTGACGAAAAATTCAAAAAAAAAATT
84834334 TGTAAATGCATATATGAGTCTAGTTTCAGGGAAAAATCACGAAGCTGATTTTCGAGTTGTGAAAC
66 TGTAAATGCATATATGAGTCTAGTTTCAGGGAAAAATCACGAAGCTGATTTTCGAGTTGTGAAAC
*
84834399 TCAAGATATGATTTTTAAGGT
131 TCAAGACATGATTTTTAAGGT
84834420 NNNNNNNNNN
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 148 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (166 bp):
AACAGGGGAGACTTTAACTAATAAACTGTACTAATTGGCCTGACGAAAAATTCAAAAAAAAAATT
TGTAAATGCATATATGAGTCTAGTTTCAGGGAAAAATCACGAAGCTGATTTTCGAGTTGTGAAAC
TCAAGACATGATTTTTAAGGTGACAGTGACGCATGT
Found at i:84839182 original size:28 final size:28
Alignment explanation
Indices: 84839142--84839216 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
84839132 ATTGCATGAG
84839142 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
84839170 TATGAATGTGATTGGGGCC-GATGGGCCA
1 TATGAATGTGATT-GGGCCTGATGGGCCA
*
84839198 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
84839217 AAAGGGGCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 5 0.11
28 34 0.77
29 5 0.11
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:84840184 original size:97 final size:97
Alignment explanation
Indices: 84840018--84840211 Score: 370
Period size: 97 Copynumber: 2.0 Consensus size: 97
84840008 ACTCATCCCC
84840018 CTCTTTTATTTTTCTTAGGTGACCCTCAGTAGGTGGTTCGACGGTTGGAGGGGCTCCGAGGGGGC
1 CTCTTTTATTTTTCTTAGGTGACCCTCAGTAGGTGGTTCGACGGTTGGAGGGGCTCCGAGGGGGC
*
84840083 CAGCTAGCAAGACAACTTGGCCTTTTTTTTTA
66 CAGCTAGCAAGACAACTTGGACTTTTTTTTTA
*
84840115 CTCTTTTATTTTTCTTAGGTGACCCTCAGTAGGTGGTTCGACGGTTGGAGGGGCTCCGAGGTGGC
1 CTCTTTTATTTTTCTTAGGTGACCCTCAGTAGGTGGTTCGACGGTTGGAGGGGCTCCGAGGGGGC
84840180 CAGCTAGCAAGACAACTTGGACTTTTTTTTTA
66 CAGCTAGCAAGACAACTTGGACTTTTTTTTTA
84840212 AGCATATAAT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (97 bp):
CTCTTTTATTTTTCTTAGGTGACCCTCAGTAGGTGGTTCGACGGTTGGAGGGGCTCCGAGGGGGC
CAGCTAGCAAGACAACTTGGACTTTTTTTTTA
Found at i:84843987 original size:34 final size:33
Alignment explanation
Indices: 84843939--84844008 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
84843929 GTAAGCAATT
*
84843939 AGTGGATGGGACTTTGAGTGATCATTTTAAACA
1 AGTGGATGAGACTTTGAGTGATCATTTTAAACA
* * *
84843972 AGTGGAGTGAGACTTTGGGTGCTCATTTTAGACA
1 AGTGGA-TGAGACTTTGAGTGATCATTTTAAACA
84844006 AGT
1 AGT
84844009 AGAAAATGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 6 0.19
34 26 0.81
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.33
Consensus pattern (33 bp):
AGTGGATGAGACTTTGAGTGATCATTTTAAACA
Found at i:84845161 original size:29 final size:29
Alignment explanation
Indices: 84845117--84845172 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
84845107 ATGGATTAAT
* *
84845117 AAAGGTGTGCTGATGCTTGGTGTTTCCTA
1 AAAGATGTGCTAATGCTTGGTGTTTCCTA
84845146 AAAGATGTGCTAATGCTTGGTGTTTCC
1 AAAGATGTGCTAATGCTTGGTGTTTCC
84845173 CAAGTGACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.38
Consensus pattern (29 bp):
AAAGATGTGCTAATGCTTGGTGTTTCCTA
Found at i:84847361 original size:48 final size:46
Alignment explanation
Indices: 84847226--84847362 Score: 112
Period size: 48 Copynumber: 2.9 Consensus size: 46
84847216 ACGTAACCTC
* * * * *
84847226 ATATCGATGCCATGTCCCAAACATAGTCTTATAAAAATCACTTATCG
1 ATATCGATGCCATGTCCC-AACATGGTCTTACAAAGATCTCGTATCG
* * * * ** *
84847273 ATACCGAAGCCATATCCCTAATATGGTCTTACATGGGATCTCGTATTG
1 ATATCGATGCCATGTCCC-AACATGGTCTTACA-AAGATCTCGTATCG
*
84847321 ATGTCGATGCCATGTCCCAGACATGGTCTTACACAAGATCTC
1 ATATCGATGCCATGTCCCA-ACATGGTCTTACA-AAGATCTC
84847363 ATCAATCATG
Statistics
Matches: 67, Mismatches: 21, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
47 27 0.40
48 40 0.60
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (46 bp):
ATATCGATGCCATGTCCCAACATGGTCTTACAAAGATCTCGTATCG
Found at i:84856172 original size:31 final size:31
Alignment explanation
Indices: 84856136--84856233 Score: 151
Period size: 31 Copynumber: 3.2 Consensus size: 31
84856126 TATCAGAGCT
* * * *
84856136 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
84856167 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
*
84856198 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
84856229 AGAAT
1 AGAAT
84856234 AAAAAATCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:84856175 original size:6 final size:6
Alignment explanation
Indices: 84856136--84856223 Score: 72
Period size: 6 Copynumber: 14.3 Consensus size: 6
84856126 TATCAGAGCT
* * *
84856136 AGAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
84856185 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AG
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC AG
84856224 GTAACAGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 3 0.05
6 55 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:84857447 original size:8 final size:8
Alignment explanation
Indices: 84857436--84857462 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
84857426 TTTTTATAAT
84857436 TTTGGTAA
1 TTTGGTAA
84857444 TTTGGTAA
1 TTTGGTAA
84857452 TTTGGTAA
1 TTTGGTAA
84857460 TTT
1 TTT
84857463 TACAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTGGTAA
Found at i:84857485 original size:27 final size:27
Alignment explanation
Indices: 84857451--84857602 Score: 157
Period size: 27 Copynumber: 5.7 Consensus size: 27
84857441 TAATTTGGTA
*
84857451 ATTT-GGTAATTTTACAAA-TTGTGGGT
1 ATTTCGGTAATTTTACAAACTAG-GGGT
* * *
84857477 ATTTCGGTAATTTCACAAACCAGTGGT
1 ATTTCGGTAATTTTACAAACTAGGGGT
*
84857504 ATTTCGGTAATTTTACAAACAAGGGGT
1 ATTTCGGTAATTTTACAAACTAGGGGT
*
84857531 ATTTTGGTAATTTTACAAACTAGGGGT
1 ATTTCGGTAATTTTACAAACTAGGGGT
* * **
84857558 ATTTTGGTAATTCTATCCTA-TAGGGGT
1 ATTTCGGTAATTTTA-CAAACTAGGGGT
* *
84857585 ATTTCAGTAATTTCACAA
1 ATTTCGGTAATTTTACAA
84857603 TCGAGGGTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.05
27 97 0.92
28 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTCGGTAATTTTACAAACTAGGGGT
Found at i:84857673 original size:27 final size:27
Alignment explanation
Indices: 84857601--84857797 Score: 243
Period size: 27 Copynumber: 7.3 Consensus size: 27
84857591 GTAATTTCAC
* *
84857601 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
84857628 ACT-GAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
84857654 AATCGAGAGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
84857681 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * * *
84857708 AATCGAGGGTAAAACGATAATTTTGCA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
84857735 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
84857762 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
84857789 AATCGAGGG
1 AATCGAGGG
84857798 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.16
27 123 0.84
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:84857731 original size:81 final size:81
Alignment explanation
Indices: 84857601--84857797 Score: 270
Period size: 81 Copynumber: 2.4 Consensus size: 81
84857591 GTAATTTCAC
* * * * * * *
84857601 AATCGAGGGTAAAACGGTAATTTTGTAACT-GAGGGTAAAATGGTAATTTTGTAAATCGAGAGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGCAAATCGAGAGTA
* *
84857665 AAATGGTAATTCTGTA
66 AAACGGTAATTCTATA
* * *
84857681 AATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGCAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGCAAATCGAGAGTA
84857746 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
84857762 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
84857798 CATTTCAGTA
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 25 0.25
81 77 0.75
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGCAAATCGAGAGTA
AAACGGTAATTCTATA
Found at i:84864409 original size:44 final size:43
Alignment explanation
Indices: 84864257--84864491 Score: 229
Period size: 44 Copynumber: 5.3 Consensus size: 43
84864247 GTTTGTTTGA
* * * * *
84864257 AAAAAACGCCGCTAAAGATCATGACCTTTAGCGACACTTTTT-
1 AAAAAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTC
* * * *
84864299 AAAAGAACGCCGCTAAAGACCAGGACTTTTTGTGGCGCTTTTTTTAG
1 AAAA-AACGCCGCTAAAGACCAAGACTTTTAGCGGCGC--TTTTT-C
*
84864346 AAAAAACGTCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTC
1 AAAAAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTC
* * * *
84864389 AAACAAACGCTGCTAGAGACCAGGACTTTTAGCGGTGCTTTTTC
1 AAA-AAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTC
* * ** *
84864433 AAACAAACGCCGCTAGAGGCCAAGACTTTTAGCGGCATTTTTTT
1 AAA-AAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTC
*
84864477 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
84864492 TTTGCCCAGT
Statistics
Matches: 161, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
42 4 0.02
43 39 0.24
44 80 0.50
45 5 0.03
46 29 0.18
47 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTC
Found at i:84864462 original size:88 final size:88
Alignment explanation
Indices: 84864257--84864491 Score: 267
Period size: 89 Copynumber: 2.6 Consensus size: 88
84864247 GTTTGTTTGA
* * * *
84864257 AAAAAACGCCGCTAAAGATCATGACCTTTAGCGACACTTTTTAAAAGAACGCCGCTAAAGACCAG
1 AAAAAACGCCGCTAAAGACCAAGACTTTTAGCGGCACTTTTTAAAA-AACGCCGCTAAAGACCAG
* * *
84864322 GACTTTTTGTGGCGCTTTTTTTAG
65 GACTTTTAGCGGCGCTTTTTTCAG
* * * *
84864346 AAAAAACGTCGCTAAAGACCAAGACTTTTAGCGGCGCTTTTTCAAACAAACGCTGCTAGAGACCA
1 AAAAAACGCCGCTAAAGACCAAGACTTTTAGCGGCACTTTTT-AAA-AAACGCCGCTAAAGACCA
*
84864411 GGACTTTTAGCGGTGC-TTTTTCA-
64 GGACTTTTAGCGGCGCTTTTTTCAG
* * * * *
84864434 AACAAACGCCGCTAGAGGCCAAGACTTTTAGCGGCATTTTTTTAAAAAACGCCACTAA
1 AAAAAACGCCGCTAAAGACCAAGACTTTTAGCGGCA-CTTTTTAAAAAACGCCGCTAA
84864492 TTTGCCCAGT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
87 9 0.07
88 34 0.28
89 47 0.39
90 31 0.25
91 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (88 bp):
AAAAAACGCCGCTAAAGACCAAGACTTTTAGCGGCACTTTTTAAAAAACGCCGCTAAAGACCAGG
ACTTTTAGCGGCGCTTTTTTCAG
Found at i:84864809 original size:21 final size:21
Alignment explanation
Indices: 84864785--84864825 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
84864775 ATTCTGCTCC
*
84864785 GCCTCCATCGCTGCTGCCTCA
1 GCCTCCAGCGCTGCTGCCTCA
*
84864806 GCCTCCCGCGCTGCTGCCTC
1 GCCTCCAGCGCTGCTGCCTC
84864826 CGCTCTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.51, G:0.22, T:0.22
Consensus pattern (21 bp):
GCCTCCAGCGCTGCTGCCTCA
Done.